Antigen

Antigen Class

TFs and others

Antigen

ESR1

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MCF7 cell line

esr1 genotype

Wild-type

treatments

Vehicle

chip antibody

ERα (Santa Cruz Biotechnologies, sc543)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and ER-bound DNA complexes were isolated with antibody (Santa Cruz, sc-543). ChIP was performed according to our in-house protocols. A minimum of 10ng DNA was sent to McGill University sequencing core. The library was prepared using TruSeq ChIP Library Preperation kit (Illumina) and was sequenced on Hiseq 2500 (Illumina). Over 16M single end 50bp reads were allocated for each sample.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

23445317

Reads aligned (%)

86.3

Duplicates removed (%)

4.3

Number of peaks

647 (qval < 1E-05)

hg19

Number of total reads

23445317

Reads aligned (%)

85.5

Duplicates removed (%)

5.7

Number of peaks

885 (qval < 1E-05)